ALFREDO CRUZ-RAMIREZ

POSITION : Professor Cinvestav 3A

GROUP : Molecular and Developmental Complexity

SNI LEVEL : Nivel-II

E-MAIL : alfredo.cruz@cinvestav.mx

View CV in spanish
Agroindustrial engineer. Instituto de Ciencias Agropecuarias of the Autonomous University of the State of Hidalgo (December, 1995).
Ms.C. in Biochemistry and Molecular Biology. Escuela Nacional de Ciencias Biológicas of the Instituto Politécnico Nacional (November 2000).
Ph.D. in Biochemistry and Molecular Biologý at the Escuela Nacional de Ciencias Biológicas of the Instituto Politécnico Nacional (november, 2004).
Postdoctoral Research Fellow. Ph.D Luis Herrera-Estrella's Lab, CINVESTAV-IPN (Ipto), Mexico (2005-2007): "Caracterización molecular de los cambios en la arquitectura de la raíz en respuesta a la disponibilidad de fósforo en Arabidopsis thaliana".
Postdoctoral Research Fellow. Ben Scheres' Lab, Utrecht University, The Netherlands. Laboratory of Molecular Genetics (2007-2012): "Study of the role of Retinoblastoma (RBR) in Assymetric Cell Division and Stem Cell mainteinance".

Awards

Honorable mention: MCs thesis at the E.N.C.B.-I.P.N./ Honorable mention: Ph.D thesis at the E.N.C.B.-I.P.N./ European Molecular Biology Organization, Longterm Postdoctoral Fellow.

Publications

Publications from 2016 to 2019

A Phylogenetic Study of the ANT Family Points to a preANT Gene as the Ancestor of Basal and euANT Transcription Factors in Land Plants. Dipp-Álvarez M, Cruz-Ramírez A. 2019.Frontiers in Plant Science. DOI=10.3389/fpls.2019.00017.


Emergent protective organogenesis in date palms: A Morpho-devo-dynamic adaptive strategy during early development." Tingting Xiao, Alejandro Aragón-Raygoza, Juan Caballero-Pérez, Gwendolyn Kirschner, Yanming Deng, Brian Atkinson, Craig Sturrock, Vinicius Lube, Jian You Wang, Gilles Lubineau, Salim Al-Babili, Alfredo Cruz-Ramírez, Malcolm Bennett and Ikram Blilou. 2019, The Plant Cell. In press


CONSTITUTIVE TRIPLE RESPONSE1 and PIN2 act in a coordinate manner to support the indeterminate root growth and meristem cell proliferating activity in Arabidopsis seedlings.Méndez-Bravo A, Ruiz-Herrera LF, Cruz-Ramírez A, Guzman P., Martínez-Trujillo M, Ortiz-Castro R, López-Bucio J.2019. Plant Science. 175-186


Transcriptional profiling of the CAM plant Agave salmiana reveals conservation of a genetic program for regeneration. Sergio Alan Cervantes-Pérez, Annie Espinal-Centeno, Araceli Oropeza-Aburto, Juan Caballero, Francisco Falcon, Alejandro Aragón-Raygoza, Lino Sánchez-Segura, Luis Herrera-Estrella, Andrés Cruz-Hernández, Alfredo Cruz-Ramírez. 2018. Developmental Biology.


The axolotl genome and the evolution of key tissue formation regulators. Sergej Nowoshilow, Siegfried Schloissnig, Ji-Feng Fei, Andreas Dahl, Andy Wing Chun Pang, Martin Pippel, Sylke Winkler, Alex R Hastie, George Robert Young, Juliana Roscito, Francisco Falcon, Dunja Knapp, Sean Powell, Alfredo Cruz-Ramírez, Han Cao, Bianca Habermann, Michael Hiller, Elly M Tanaka, Eugene W Myers. 2018. Nature 554:50-55


Transcriptional landscapes of Axolotl (Ambystoma mexicanum). Juan Caballero, Annie Espinal-Centeno, Francisco Falcon, Luis Fernando García-Ortega, Everardo Curiel-Quesada, Andrés Cruz-Hernandez, László Bakó, Xuemei Chen, Octavio Martínez, Mario Arteaga-Vazquez, Luis Herrera-Estrella, Alfredo Cruz-Ramírez. 2017. Developmental Biology. 433:227-239


XYLEM NAC DOMAIN1, an angiosperm NAC transcription factor, inhibits xylem differentiation through conserved motifs that interact with RETINOBLASTOMA-RELATED. Chengsong Zhao, Theres Lasses, László Bakó, Danyu Kong, Bingyu Zhao, Bidisha Chanda, Aureliano Bombarely, Alfredo Cruz-Ramírez, Ben scheres, Amy M. Brunner, Eric P. Beers. 2017. New Phythologist. 216: 76-89

Phosphate Starvation-Dependent Iron Mobilization Induces CLE14 Expression to Trigger Root Meristem Differentiation through CLV2/PEPR2 Signaling. Dolores Gutierrez Alanis, Lenin Yong, Pedro Jiménez, Funlgencio Alatorre-Cobos, Araceli Oropeza-Aburto, Javier Mora, Federico Sánchez-Rodríguez, Alfredo Cruz-Ramírez, Luis Herrera-Estrella. 2017. Developmental Cell 41:555-570


Computational Modeling of Auxin: A Foundation for Plant Engineering. Alejandro Morales-Tapia and Alfredo Cruz Ramirez. 2016. Front. Plant Sci. (7) 1881. doi: 10.3389/fpls.2016.01881


A phosphate starvation-driven bidirectional promoter as a potential tool for crop improvement and in vitro plant biotechnology. Araceli Oropeza-Aburto, Alfredo Cruz-Ramírez A, Javier Mora-Macías, Luis Herrera-Estrella. 2016. Plant Biotechnol J. Oct 24.doi: 10.1111/pbi.12653. [Epub ahead of print] PubMed PMID: 27775858.


MicroRNAs Sequencing for Understanding the Genetic Regulation of Plant Genomes. Christopher Cedillo, Marcelo Hernández-Salazar, Tania Escobar-Feregrino, Juan Caballero, Mario Arteaga-Vazquez, Alfredo Cruz-Ramírez, Irineo Torres Pacheco, Ramón Gerardo Guevara-Gonzalez, Andres Cruz-Hernandez. 2016. In Plant Genomics.


The Role of microRNAs in Animal Cell Reprogramming. María Concepción Cruz-Santos, Alejandro Aragón-Raygoza, Annie Espinal-Centeno, Mario Arteaga-Vázquez, Andrés Cruz-Hernández, Laszlo Bako, and Alfredo Cruz-Ramírez. 2016. Stem Cells and Development 25.14, 1035-1049.


RETINOBLASTOMA-RELATED protein stimulates cell differentiation in the Arabidopsis root meristem by interacting with cytokinin signaling. Serena Perilli, Jose Manuel Perez-Perez, Riccardo Di Mambro , Cristina Llavata Peris, Sara Díaz-Triviño, Del Marta del Bianco, Emanuela Pierdonati, Laila Moubayidin, Alfredo Cruz-Ramírez, Paolo Costantino, Ben Scheres, Sabrina Sabatini. 2016. Plant Cell 25:4469-78.


Publications from 2011 to 2015

Methylome analysis reveals an important role for epigenetic changes in the regulation of the Arabidopsis response to phosphate starvation. Lenin Yong-Villalobos, Sandra Isabel González-Morales, Kazimierz Wrobel, Dolores Gutiérrez-Alanis, Sergio Alan Cervantes-Peréz, Corina Hayano-Kanashiro, Araceli Oropeza-Aburto, Alfredo Cruz-Ramírez, Octavio Martínez, and Luis Herrera-Estrella. 2015. PNAS 112 (52) E7293-E7302; published ahead of print December 14, 2015, doi:10.1073/pnas.1522301112.


Reprogramación celular de embriones de Anthurium andraeanum por fitohormonas para micropropagación masiva. Julieta Mireles-Ordaz, Abraham Arellano-Perusquia, Annie Espinal-Centeno, Lino Sánchez-Segura, Andrés Estrada-Luna, and Luis Alfredo Cruz-Ramírez. 2015. Nova Scientia Vol. 7, núm. 15: 49-67.


Arabidopsis BIRD Zinc Finger Proteins Jointly Stabilize Tissue Boundaries by Confining the Cell Fate Regulator SHORT-ROOT and Contributing to Fate Specification. Yuchen Long, Wouter Smet, Alfredo Cruz-Ramírez, Bas Castelijns, Wim de Jonge, Ari Pekka Mähönen, Benjamin P. Bouchetd, Gabino Sanchez Perez, Anna Akhmanova, Ben Scheres, and Ikram Blilou. 2015. The Plant Cell.


Irreversible fate commitment in the Arabidopsis stomatal lineage requires a FAMA and RETINOBLASTOMA-RELATED module. Juliana L. Matos, Charles Hachez, On Su Lau, Alfredo Cruz-Ramírez, Ben Scheres, Dominique C. Bergman. 2014. eLife 03271.


Plants as Bioreactors for Human Health Nutrients. Chapter 15 in Biosystems Engineering: Biofactories for Food Production in the Century XXI. Cruz-Ramírez Luis Alfredo, García-Ramírez Jesús Agustín, Rico-Resendiz Felix Edgardo, Membrilla-Ochoa Alfonso, Herrada-Alonso Janette, Escobar-Feregrino Tania, Torres-Pacheco Irineo, Guevara-González G. Ramón,Campos-Guillén Juan and Cruz-Hernández Andrés. 2013. Springer International Publishing, 423-54.


A SCARECROW-RETINOBLASTOMA Protein Network Controls Protective Quiescence in the Arabidopsis Root Stem Cell Organizer. Alfredo Cruz-Ramírez, Sara Díaz-Triviño, Guy Wachsman, Yujuan Du, Mario Arteága-Vázquez, Hongtao Zhang, Rene Benjamins, Ikram Blilou, Anne B. Neef, Vicki Chandler and Ben Scheres. 2013. Plos Biology, 11: e1001724.


An attenuated bi-stable circuit involving SCARECROW-RETINOBLASTOMA interaction mediates asymmetric stem cell divisions in Arabidopsis. Alfredo Cruz-Ramírez, Sara Díaz-Triviño, Ikram Blilou, Verónica A. Grieneisen, Athanasius F. M. Marée, Rosangela Sozzani, Christos Zamioudis, Pál Miskolczi, Jeroen Nieuwland, René Benjamins, Pankaj Dhonukshe, Juan Caballero-Pérez, Beatrix Horvath, Ari Pekka Mähonën,Jian Xu, James A.H. Murray, Philip N. Benfey, Laszlo Bako and Ben Scheres. 2012. Cell, 150: 1002-15.


Translational regulation of Arabidopsis XIPOTL1 is modulated by phosphocholine levels via the phylogenetically conserved upstream open reading frame 30. Alatorre-Cobos, Alfredo Cruz-Ramírez, Celine A. Hayden, Claudia-Anahí Pérez Torres, Anne-Laure Chauvin, Enrique Ibarra-Laclette, Erika Alva-Cortés, Richar Jorgensen and Luis Herrera-Estrella. 2012. J. Exp. Bot. 63: 5203-21.


Functional and Transcriptome Analysis Reveals an Aclimatization Strategy for Abiotic Stress Tolerance mediated by Arabidopsis NF-YA Family members. Marco Antonio Leyva-González, Enrique Ibarra-Laclette, Alfredo Cruz-Ramírez and Luis Herrera-Estrella. 2012. PLoS One. 7: e48138.


Functional analysis of the Arabidopsis PLDZ2 promoter reveals an evolutionarily conserved low-Pi-responsive transcriptional enhancer element. Araceli Oropeza-Aburto, Alfredo Cruz-Ramírez, Gustavo J. Acevedo-Hernández, Claudia-Anahí Pérez-Torres, Juan Caballero-Pérez, and Luis Herrera-Estrella. 2012. J Exp Bot, 635: 2189-202.

Howto stimulate stem cells in plants. Akie Shimotohno, Hongtao Zhang, Alfredo Cruz-Ramírez and Scheres Ben. 2011. Netherlands Proteomics Center Highlights. Volume 14.


Publications from 2006 to 2010

Effect of Nutrient Availability on Root System Development. Cruz-Ramírez A, Calderón-Vázquez and Herrera-Estrella L. 2009. pp 288–324. Annual Plant Reviews, Volume 37: Root Development. Wiley-Blackwell Publishing.


The genome of Bacillus coahuilensis reveals adaptationsessential for survival in the relic of an ancient marine environment. Alcaraz LD, Olmedo G, Bonilla G, Cerritos R, Hernández G, Cruz A, Ramírez E, Putonti C, Jiménez B, Martínez E, López V, Arvizu JL, Ayala F, Razo F, CaballeroJ, Siefert J, Eguiarte L, Vielle JP, Martínez O, Souza V, Herrera-Estrella A, Herrera-Estrella L. 2008. Proc.Nac. Acad. Sci. (PNAS) 105: 5803-8.


Phosphate Availability Alters Lateral Root Development in Arabidopsis by Modulating Auxin Sensitivity via a Mechanism Involving the TIR1 Auxin Receptor. Claudia-Anahí Pérez-Torres, Jose López-Bucio, Alfredo Cruz-Ramírez, EnriqueIbarra-Laclette, Sunethra Dharmasiri, Mark Estelle and Luis Herrera-Estrella. 2008. The Plant Cell, 20: 3258-72.


Phospholipase DΖ2 plays an important role in extraplastidic galactolipid biosynthesis and Pi recycling in Arabidopsis roots. Alfredo Cruz-Ramírez, Araceli Oropeza-Aburto, Francisco Razo-Hernández, Enrique Ramírez-Chavez, Luis Herrera Estrella. 2006. Proc. Nac. Acad. Sci. (PNAS), 103: 6765–70.


Mexican crops of agroalimentary importance. In Advances in Agricultural and Food Biotechnology. Cruz-Ramírez Luís Alfredo, Valdez-Morales Maribel, Chacón-López Martina Alejandra, Rosas-Cárdenas Flor de Fátima and Cruz-Hernández Andrés. 2006. Research Signpost 35-53.


Publications from 2000 to 2005

Phosphate Starvation Induces a Determinate Developmental Program inthe Roots of Arabidopsis thaliana. Lenin Sánchez-Calderón, José López-Bucio, Alejandra Chacón-López, Alfredo Cruz-Ramírez, Fernanda Nieto-Jacobo, Joseph G. Dubrovsky and Luis Herrera Estrella. 2005. Plant Cell Physiol, 46: 174-84.


Root architecture. In Plant Architecture and its Manipulation. J. López-Bucio, A. Cruz-Ramírez, A. Pérez-Torres, J. G. Ramírez-Pimentel, L. Sánchez- Calderón and L. Herrera-Estrella. 2005. Annual Plant Reviews, Volume 17. Blackwell Publishing.


The xipotl Mutant of Arabidopsis Reveals a Critical Role for Phospholipid Metabolism in Root System Development and Epidermal Cell Integrity. Alfredo Cruz-Ramírez, Jose López-Bucio, Gabriel Ramírez-Pimentel, Andrés Zurita-Silva, Lenin Sánchez-Calderon, Enrique Ramırez-Chavez, Emmanuel Gonzalez-Ortega, and Luis Herrera-Estrella. 2004. The Plant Cell, 16: 2020–34.


The role of nutrient availability in regulating root architecture. José López-Bucio, Alfredo Cruz-Ramírez and Luis Herrera-Estrella. 2003. Current Opinion in Plant Biology, 6: 280–87.